/[genomes]/quickload/H_sapiens_Feb_2009/HEADER.md
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Revision 79 - (hide annotations)
Sat Oct 27 01:34:05 2018 UTC (4 years, 1 month ago) by aloraine
File size: 1265 byte(s)
Fix typo; Suggest that psl files may not be available for every assembly
1 aloraine 10 <html>
2     <body>
3     <h1>Homo sapiens (Feb 2009) human being (GRCh37/hg19) genome assembly</h1>
4     <p>
5     The files listed below are formatted for visualization in the Integrated Genome
6 aloraine 15 Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
7 aloraine 10 </p>
8     <p>
9 aloraine 79 Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome
10 aloraine 10 Bioinformatics Table Browser. Each file is named for its corresponding table in the
11     UCSC Genome database. See the <a href="annots.xml">annots.xml</a> meta-data file in
12     this directory for details.
13     </p>
14     <p>
15     Files with extension .gz were compressed and indexed using bgzip and
16 aloraine 79 tabix tools from <a href="https://www.htslib.org">htslib.org</a>.
17 aloraine 10 </p>
18     <p>
19     The file named H_sapiens_Feb_2009.2bit contains sequence data and was downloaded from the UCSC Genome
20     Bioinformatics <a href="http://hgdownload-test.sdsc.edu/downloads.html">downloads
21     page</a>. To convert a .2bit to fasta, use twoBitToFa. The file
22     <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
23     H_sapiens_Feb_2009.2bit sequence file using twoBitInfo.
24     </p>
25     <p>
26     Both twoBitInfo and twoBitToFa are
27     available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
28     </p>
29     </body>
30     </html>

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